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% $Header: /u/gcmpack/manual/part3/tutorials.tex,v 1.11 2006/06/27 19:08:22 molod Exp $ |
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adcroft |
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% $Name: $ |
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molod |
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\section[MITgcm Example Experiments]{Example experiments} |
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\label{sect:modelExamples} |
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\begin{rawhtml} |
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<!-- CMIREDIR:modelExamples: --> |
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\end{rawhtml} |
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%% a set of pre-configured numerical experiments |
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The full MITgcm distribution comes with a set of pre-configured numerical experiments. |
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Some of these example experiments are tests of individual parts of the model code, but many |
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are fully fledged numerical simulations. Full tutorials exist for a few of the examples, |
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and are documented in sections \ref{sect:eg-baro} - \ref{sect:eg-tank}. The other examples |
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follow the same general structure as the tutorial examples. However, they only include brief |
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instructions in a text file called {\it README}. The examples are located in subdirectories |
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under the directory \texttt{verification}. Each example is briefly described below. |
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\subsection{Full list of model examples} |
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\begin{enumerate} |
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\item \texttt{tutorial\_barotropic\_gyre} |
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\item \texttt{tutorial\_barotropic\_gyre} - single layer, ocean double gyre |
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(barotropic with free-surface). This experiment is described in detail in section |
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\ref{sect:eg-baro}. |
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\item \texttt{tutorial\_baroclinic\_gyre} - Four layer, ocean double gyre. This experiment |
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is described in detail in section \ref{sect:eg-fourlayer}. |
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\item \texttt{tutorial\_global\_oce\_latlon} - 4x4 degree global ocean simulation with steady |
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climatological forcing. This experiment is described in detail in section \ref{sect:eg-global}. |
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\item \texttt{exp4} - Flow over a Gaussian bump in open-water or channel with open boundaries. |
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\item \texttt{tutorial\_deep\_convection} - Inhomogenously forced ocean convection in a |
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doubly periodic box. This experiment is described in detail in section \ref{sect:eg-bconv}. |
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\item \texttt{front\_relax} - Relaxation of an ocean thermal front (test for |
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Gent/McWilliams scheme). 2D (Y-Z). |
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\item \texttt{internal\_wave} - Ocean internal wave forced by open |
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boundary conditions. |
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\item \texttt{natl\_box} - Eastern subtropical North Atlantic with KPP |
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scheme; 1 month integration |
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\item \texttt{hs94.1x64x5} - Zonal averaged atmosphere using Held and |
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Suarez '94 forcing. |
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\item \texttt{hs94.128x64x5} - 3D atmosphere dynamics using Held and |
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Suarez '94 forcing. |
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\item \texttt{tutorial\_held\_suarez\_cs} - 3D atmosphere dynamics using Held and Suarez |
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(1994) forcing on the cubed sphere. This experiment is described in detail in |
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section \ref{sect:eg-hs}. |
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\item \texttt{aim.5l\_zon-ave} - Intermediate Atmospheric physics. |
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Global Zonal Mean configuration, 1x64x5 resolution. |
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\item \texttt{aim.5l\_XZ\_Equatorial\_Slice} - Intermediate |
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Atmospheric physics, equatorial Slice configuration. 2D (X-Z). |
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\item \texttt{aim.5l\_Equatorial\_Channel} - Intermediate Atmospheric |
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physics. 3D Equatorial Channel configuration. |
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\item \texttt{aim.5l\_LatLon} - Intermediate Atmospheric physics. |
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Global configuration, on latitude longitude grid with 128x64x5 grid |
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points ($2.8^\circ$ resolution). |
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\item \texttt{aim.5l_cs} |
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\item \texttt{adjustment.128x64x1} Barotropic adjustment problem on |
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latitude longitude grid with 128x64 grid points ($2.8^\circ$ resolution). |
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\item \texttt{adjustment.cs-32x32x1} Barotropic adjustment problem on |
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cube sphere grid with 32x32 points per face (roughly $2.8^\circ$ |
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resolution). |
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\item \texttt{advect\_cs} Two-dimensional passive advection test on |
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cube sphere grid. |
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\item \texttt{advect\_xy} Two-dimensional (horizontal plane) passive |
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advection test on Cartesian grid. |
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\item \texttt{advect\_xz} Two-dimensional (vertical plane) passive |
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advection test on Cartesian grid. |
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\item \texttt{tutorial\_tracer\_adjsens} Simple passive tracer experiment. Includes |
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derivative calculation. This experiment is described in detail in section |
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\ref{sect:eg-simple-tracer}. |
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\item \texttt{flt\_example} Example of using float package. |
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\item \texttt{global\_ocean.90x40x15} Global circulation with GM, flux |
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boundary conditions and poles. |
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\item \texttt{tutorial\_global\_oce\_in\_p} Global circulation in pressure |
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coordinate (non-Boussinesq ocean model). Described in detail in |
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section \ref{sect:eg-globalpressure}. |
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\item \texttt{solid-body.cs-32x32x1} Solid body rotation test for cube |
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sphere grid. |
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\item \texttt{tutorial\_plume\_on\_slope} Gravity Plume on a continental slope. |
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This experiment is described in detail in section \ref{sect:eg-gravityplume}. |
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\item \texttt{tutorial\_global\_oce\_biogeo} Ocean model coupled to the dissolved |
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inorganic carbon biogeochemistry model. This experiment is described in detail in section |
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\ref{sect:eg-biogeochem\_tutorial}. |
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\item \texttt{tutorial\_global\_oce\_optim} Global ocean state estimation at $4^\circ$ resolution. |
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This experiment is described in detail in section \ref{sect:eg-global\_state\_estimate}. |
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\item \texttt{tutorial\_offline} Offline form of the MITgcm to study advection of a passive |
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tracer. This experiment is described in detail in section \ref{sect:eg-offline}. |
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\item \texttt{rotating\_tank} Rotating tank simulation in cylindrical coordinates. |
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This experiment is described in detail in section \ref{sect:eg-tank}. |
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\item \texttt{MLAdjust} Simple test for different viscosity formulations. |
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\item \texttt{bottom_ctrl_5x5} Adjoint test using the bottom topography as the |
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control parameter. |
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\item \texttt{cfc_example} Global ocean with online computation and advection of |
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CFC11 and CFC12. |
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\item \texttt{dome} Idealized 3D test of a density-driven bottom current. |
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\item \texttt{exp2} Old version of the global ocean experiment. |
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\item \texttt{exp5} Deep convection. |
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\item \texttt{fizhi-cs-32x32x10} Global atmospheric simulation with realistic topography, |
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10 vertical levels, a cubed sphere grid and the full atmospheric physics package. |
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\item \texttt{fizhi-cs-aqualev20} Global atmospheric simulation on an aqua planet with |
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full atmospheric physics. Run is perpetual march with an analytical SST distribution. |
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This is the configuration for the APE (Aqua Planet Experiment) participation experiment. |
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\item \texttt{fizhi-gridalt-hs} Global atmospheric simulation Held-Suarez (1994) forcing, |
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with the physical forcing and the dynamical forcing running on different vertical grids. |
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\item \texttt{global_ocean.cs32x15} Global ocean experiment on the cubed sphere grid, using |
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thermodynamic sea ice and bulk force packages. |
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\item \texttt{global_ocean_ebm} Global ocean experiment on a lat-lon grid coupled to an |
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atmospheric energy balance model. Similar to global_ocean.90x40x15 experiment. |
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\item \texttt{global_with_exf} Global ocean experiment on a lat-lon grid using the exf |
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package. Similar to global_ocean.90x40x15 experiment. |
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\item \texttt{hs94.cs-32x32x5} 3D atmosphere dynamics using Held and Suarez |
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(1994) forcing on the cubed sphere. 5 vertical levels. |
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\item \texttt{ideal_2D_oce} Idealized 2D global ocean simulation on an aqua planet. |
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\item \texttt{inverted_barometer} Simple test of ocean response to atmospheric pressure |
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loading. |
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\item \texttt{lab_sea} Regional Labrador Sea simulation on a lat-lon grid. Coupled to |
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the sea ice model. |
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\item \texttt{matrix_example} Test of experimental method to accelerated convergence towards |
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equillibrium. |
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\item \texttt{tutorial_cfc_offline} Offline form of the MITgcm to study advection of a passive |
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tracer and CFCs. |
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\item \texttt{vermix} Simple test in a small domain (3 columns) for ocean vertical mixing schemes. |
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\end{enumerate} |
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\subsection{Directory structure of model examples} |
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Each example directory has the following subdirectories: |
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\begin{itemize} |
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\item \texttt{code}: contains the code particular to the example. At a |
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minimum, this directory includes the following files: |
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\begin{itemize} |
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\item \texttt{code/packages.conf}: declares the list of packages or |
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package groups to be used. If not included, the default version |
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is located in \texttt{pkg/pkg\_default}. Package groups are |
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simply convenient collections of commonly used packages which are |
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defined in \texttt{pkg/pkg\_default}. Some packages may require |
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other packages or may require their absence (that is, they are |
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incompatible) and these package dependencies are listed in |
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\texttt{pkg/pkg\_depend}. |
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\item \texttt{code/CPP\_EEOPTIONS.h}: declares CPP keys relative to |
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the ``execution environment'' part of the code. The default |
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version is located in \texttt{eesupp/inc}. |
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\item \texttt{code/CPP\_OPTIONS.h}: declares CPP keys relative to |
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the ``numerical model'' part of the code. The default version is |
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located in \texttt{model/inc}. |
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\item \texttt{code/SIZE.h}: declares size of underlying |
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computational grid. The default version is located in |
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\texttt{model/inc}. |
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\end{itemize} |
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In addition, other include files and subroutines might be present in |
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\texttt{code} depending on the particular experiment. See Section 2 |
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for more details. |
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\item \texttt{input}: contains the input data files required to run |
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the example. At a minimum, the \texttt{input} directory contains the |
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following files: |
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\begin{itemize} |
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\item \texttt{input/data}: this file, written as a namelist, |
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specifies the main parameters for the experiment. |
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\item \texttt{input/data.pkg}: contains parameters relative to the |
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packages used in the experiment. |
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\item \texttt{input/eedata}: this file contains ``execution |
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environment'' data. At present, this consists of a specification |
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of the number of threads to use in $X$ and $Y$ under multithreaded |
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execution. |
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\end{itemize} |
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In addition, you will also find in this directory the forcing and |
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topography files as well as the files describing the initial state |
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of the experiment. This varies from experiment to experiment. See |
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section 2 for more details. |
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\item \texttt{results}: this directory contains the output file |
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\texttt{output.txt} produced by the simulation example. This file is |
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useful for comparison with your own output when you run the |
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experiment. |
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\end{itemize} |
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Once you have chosen the example you want to run, you are ready to |
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compile the code. |
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\newpage |
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adcroft |
1.1 |
\input{part3/case_studies/barotropic_gyre/baro.tex} |
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\newpage |
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\input{part3/case_studies/fourlayer_gyre/fourlayer.tex} |
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\newpage |
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\input{part3/case_studies/climatalogical_ogcm/climatalogical_ogcm.tex} |
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mlosch |
1.3 |
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\newpage |
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\input{part3/case_studies/ogcm_in_pressure/ogcm_in_pressure.tex} |
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adcroft |
1.1 |
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\newpage |
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jmc |
1.8 |
\input{part3/case_studies/held_suarez_cs/held_suarez_cs.tex} |
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adcroft |
1.1 |
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\newpage |
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\input{part3/case_studies/doubly_periodic_convection/convection.tex} |
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\newpage |
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\input{part3/case_studies/plume_on_slope/plume_on_slope.tex} |
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\newpage |
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\input{part3/case_studies/carbon_outgassing_sensitivity/co2sens.tex} |
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afe |
1.5 |
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edhill |
1.6 |
\newpage |
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\input{part3/case_studies/biogeochem_tutorial/biogeochem.tex} |
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dfer |
1.7 |
\newpage |
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\input{part3/case_studies/global_oce_estimation/global_oce_estimation.tex} |
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edhill |
1.9 |
\newpage |
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molod |
1.11 |
\input{part3/case_studies/sens_airsea_tracer/doc_ad_examples.tex} |
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\newpage |
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edhill |
1.9 |
\input{part3/case_studies/offline/offline_tutorial.tex} |
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afe |
1.5 |
\newpage |
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\input{part3/case_studies/rotating_tank/tank.tex} |
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